genome.fa.s1547.2.7.7.80.10.50.1000.16.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  16  of  51  ( 6083 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3232199--3232286	45	2.0	45	83	0	113	19	19	17	44	1.87
3233305--3233452	26	5.5	26	70	16	97	47	23	1	27	1.60
3233325--3233351	10	2.7	10	100	0	54	48	22	0	29	1.51
3233305--3233489	68	2.5	71	88	10	250	47	24	1	27	1.59
3233353--3233394	12	3.5	12	100	0	84	50	19	0	30	1.48
3233305--3233462	80	2.0	80	98	0	307	47	23	1	27	1.59
3233405--3233431	10	2.7	10	100	0	54	48	22	0	29	1.51
3233433--3233462	12	2.5	12	88	0	51	50	16	0	33	1.46
3233341--3233508	28	6.1	28	64	22	104	47	24	0	27	1.56
3233377--3233540	58	2.9	55	79	13	215	46	25	1	26	1.60
3237492--3237568	29	2.7	29	81	4	102	41	7	9	41	1.65
3240289--3240324	17	2.0	19	89	10	58	55	5	5	33	1.46
3240877--3241803	215	4.3	215	97	0	1687	43	17	7	31	1.76
3242082--3242121	19	2.1	20	86	9	57	42	0	15	42	1.46
3251626--3252050	216	2.0	209	93	5	721	25	20	13	41	1.88
3252256--3252292	2	18.5	2	94	0	65	48	2	0	48	1.15
3252361--3252404	21	2.1	21	83	8	54	15	15	0	68	1.22
3252408--3252461	23	2.5	20	81	18	65	29	1	1	66	1.12
3252410--3252462	20	2.7	18	76	18	52	30	1	1	66	1.13
3263081--3263182	53	1.9	53	85	0	141	49	13	22	14	1.79
3263958--3264935	105	9.3	105	98	0	1872	34	25	17	21	1.96
3266816--3266846	2	15.5	2	93	0	53	45	3	0	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3266917--3266961	21	2.1	21	84	8	56	17	15	0	66	1.25
3266951--3267006	25	2.3	24	87	9	78	23	5	1	69	1.18
3267042--3267102	27	2.3	26	81	8	70	27	6	1	63	1.28
3268241--3268291	23	2.2	23	82	0	57	43	11	13	31	1.80
3268435--3268467	16	2.1	16	100	0	66	51	42	0	6	1.26
3279247--3279295	2	25.0	2	95	4	91	51	0	0	48	1.00
3281314--3281373	23	2.6	23	100	0	120	38	30	20	11	1.88
3281314--3281483	21	7.8	21	75	3	97	38	25	15	20	1.92
3281314--3281486	44	3.9	44	72	6	127	39	24	16	19	1.92
3285917--3286064	21	7.0	21	73	3	107	42	23	10	22	1.85
3285895--3285997	44	2.3	44	81	0	116	38	26	15	19	1.91
3286432--3286463	2	16.0	2	100	0	64	50	0	0	50	1.00
3286900--3286969	35	2.0	35	83	10	90	27	27	15	30	1.96
3291457--3291611	51	3.0	51	94	0	265	34	7	23	34	1.82
3292354--3292509	32	4.9	32	86	5	210	26	17	21	34	1.96
3293738--3293791	3	18.3	3	96	3	101	68	0	0	31	0.90
3301689--3301730	15	2.6	16	82	17	52	61	0	4	33	1.17
3305070--3305113	19	2.3	19	100	0	88	45	9	11	34	1.72
3305575--3305613	2	19.5	2	94	0	69	48	2	0	48	1.15
3306805--3306871	3	22.3	3	90	6	109	67	0	1	31	1.00
3308152--3308382	76	3.1	75	83	3	286	32	16	11	38	1.85
3308207--3308327	40	3.1	40	70	11	117	30	17	11	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3308336--3308801	39	11.9	39	86	2	616	32	15	15	36	1.90
3308340--3308801	79	5.9	79	88	2	637	31	16	15	36	1.90
3309015--3309071	21	2.7	21	94	0	96	28	19	26	26	1.99
3314083--3314124	22	1.9	22	95	0	75	28	40	23	7	1.81
3316966--3317042	2	39.5	2	92	5	131	48	0	0	51	1.00
3317773--3318188	201	2.0	205	96	3	777	49	12	10	27	1.72
3320901--3320936	16	2.2	17	90	5	56	47	0	2	50	1.15
3322445--3322472	4	7.0	4	100	0	56	75	0	0	25	0.81
3323951--3323976	7	3.7	7	100	0	52	11	0	57	30	1.34
3327504--3327542	20	2.0	20	89	0	60	7	23	38	30	1.83
3329261--3329333	32	2.3	31	85	2	92	38	16	19	26	1.92
3331372--3331417	2	23.0	2	95	0	83	50	2	0	47	1.13
3333116--3333161	7	6.6	7	81	13	51	2	10	0	86	0.64
3333116--3333164	11	4.5	11	82	10	64	2	12	0	85	0.68
3333113--3333162	17	3.1	15	75	13	55	2	12	0	86	0.67
3333201--3333234	17	2.0	17	94	0	59	0	14	0	85	0.60
3337173--3337197	13	1.9	13	100	0	50	24	28	32	16	1.96
3337863--3338160	58	5.1	58	74	11	270	29	23	9	37	1.87
3337856--3338220	116	3.1	116	90	3	547	30	23	9	36	1.87
3344321--3344373	22	2.4	22	90	0	79	39	13	26	20	1.89
3344382--3344416	12	2.9	12	95	0	61	34	20	17	28	1.95
3344963--3345280	59	5.4	58	75	10	324	28	23	9	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3344994--3345338	58	5.9	58	75	11	310	28	24	10	36	1.88
3344973--3345339	117	3.1	117	92	0	601	29	24	9	36	1.88
3344880--3345348	59	8.0	57	69	12	211	30	23	10	36	1.88
3350691--3350734	17	2.6	17	92	0	70	22	36	9	31	1.86
3353111--3353326	5	43.0	5	70	18	78	73	5	4	16	1.18
3353399--3353427	2	14.5	2	100	0	58	51	0	0	48	1.00
3353480--3353513	18	1.9	17	88	5	50	58	0	2	38	1.13
3357802--3357869	35	1.9	35	81	0	82	42	5	0	51	1.26
3358142--3358202	30	2.1	30	81	9	72	49	4	0	45	1.23
3358784--3358852	35	2.0	35	94	2	122	40	13	11	34	1.80
3361442--3361538	35	2.8	33	81	12	113	32	1	23	42	1.61
3361458--3361536	35	2.2	37	91	6	128	32	0	21	45	1.52
3371821--3372298	81	6.0	81	86	3	635	36	13	21	28	1.91
3376164--3376296	63	2.1	62	84	11	175	41	8	4	45	1.54
3376750--3376781	14	2.3	14	94	0	55	9	15	25	50	1.74
3376751--3376801	24	2.1	24	85	7	68	13	11	19	54	1.69
3377651--3377727	12	6.7	12	83	7	106	27	22	25	24	2.00
3377651--3377775	24	5.3	23	90	2	126	24	21	25	28	1.99
3377981--3378031	16	3.3	16	89	5	79	11	9	17	60	1.57
3378264--3378305	21	1.9	21	85	9	57	26	0	4	69	1.08
3378366--3378398	15	2.3	15	89	5	50	18	0	3	78	0.87
3379433--3379494	32	1.9	32	83	0	79	40	12	9	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381255--3381307	3	17.7	3	78	7	54	60	3	3	32	1.32
3381493--3381522	15	2.1	15	93	6	53	16	6	6	70	1.31
3382825--3382928	31	3.3	31	75	7	84	25	29	27	17	1.97
3382807--3382928	63	1.9	63	83	6	158	25	28	27	18	1.98
3383817--3383947	28	4.6	29	83	6	153	37	26	5	30	1.79
3383982--3384060	19	4.2	19	85	6	79	21	31	26	20	1.98
3384006--3384058	10	5.5	10	75	8	56	20	30	30	18	1.97
3385862--3385904	18	2.3	19	96	4	79	4	18	0	76	0.95
3386672--3386711	21	1.9	21	84	0	53	37	0	12	50	1.41
3389887--3389936	8	6.4	8	76	19	52	72	4	0	24	1.02
3389903--3389943	15	2.6	16	85	14	59	78	2	0	19	0.87
3389906--3389943	5	7.4	5	85	11	51	78	2	0	18	0.86
3389900--3389945	17	2.7	18	80	19	62	78	2	0	19	0.86
3389906--3389969	24	2.6	24	85	5	74	78	4	3	14	1.04
3391749--3391788	19	2.0	20	86	13	57	22	7	15	55	1.65
3392429--3392471	19	2.3	18	88	11	61	6	20	2	69	1.23
3395264--3395311	21	2.3	21	88	0	69	25	0	4	70	1.04
3395278--3395324	15	3.2	15	79	11	53	23	2	4	70	1.16
3396628--3396661	2	17.0	2	100	0	68	50	0	0	50	1.00
3399592--3399653	29	2.1	29	91	5	99	35	8	16	40	1.78
3401984--3402163	89	2.0	91	82	11	219	31	25	22	21	1.98
3405635--3405668	17	2.0	17	100	0	68	58	5	17	17	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3407389--3407460	36	2.0	37	89	8	112	43	15	12	29	1.83
3411563--3411632	20	3.3	20	80	8	59	77	5	14	2	1.07
3413130--3413239	36	3.0	37	89	5	161	26	24	12	36	1.91
3413148--3413641	102	4.9	102	93	0	801	29	20	12	37	1.90
3413266--3413336	37	1.9	37	88	0	106	23	21	12	42	1.87
3413454--3413540	37	2.4	37	86	5	115	25	21	13	39	1.90
3413555--3413624	36	1.9	36	88	0	104	25	21	12	40	1.89
3413555--3413641	36	2.4	36	84	0	93	27	20	12	39	1.89
3413583--3413741	67	2.4	67	87	4	223	32	21	11	34	1.89
3414318--3414684	109	3.4	107	82	7	399	33	24	19	22	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51